AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene062893

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062893.t1 MTR_4g071150 98.026 152 1 1 1 150 1 152 9.78e-101 285
MS.gene062893.t1 MTR_2g096610 87.333 150 17 1 1 150 1 148 4.41e-83 241
MS.gene062893.t1 MTR_4g064005 94.000 150 7 1 1 150 1 148 1.32e-82 239
MS.gene062893.t1 MTR_4g063410 94.000 150 7 1 1 150 1 148 2.70e-82 239
MS.gene062893.t1 MTR_2g096570 91.558 154 8 2 1 150 1 153 5.64e-82 238
MS.gene062893.t1 MTR_4g063280 92.424 132 9 1 20 150 14 145 2.84e-81 236
MS.gene062893.t1 MTR_4g064967 93.333 150 8 1 1 150 1 148 2.98e-80 234
MS.gene062893.t1 MTR_8g086640 96.212 132 5 0 1 132 1 132 4.27e-75 221
MS.gene062893.t1 MTR_7g113160 79.699 133 26 1 10 142 13 144 5.01e-71 210
MS.gene062893.t1 MTR_7g108320 75.000 128 26 3 4 130 6 128 7.58e-60 182
MS.gene062893.t1 MTR_7g114060 74.219 128 29 1 3 130 2 125 7.85e-60 182
MS.gene062893.t1 MTR_7g114040 74.219 128 29 1 3 130 2 125 7.85e-60 182
MS.gene062893.t1 MTR_7g093910 73.228 127 31 1 4 130 5 128 9.33e-60 181
MS.gene062893.t1 MTR_2g082510 70.543 129 38 0 11 139 3 131 3.21e-59 180
MS.gene062893.t1 MTR_2g082220 73.950 119 31 0 11 129 3 121 1.65e-57 176
MS.gene062893.t1 MTR_6g005150 62.992 127 33 3 24 149 26 139 3.16e-47 150
MS.gene062893.t1 MTR_4g063300 75.238 105 21 1 45 149 10 109 3.34e-46 146
MS.gene062893.t1 MTR_7g114050 68.644 118 22 3 17 130 10 116 2.19e-45 145
MS.gene062893.t1 MTR_1g011750 60.714 112 42 2 21 131 23 133 3.59e-36 121
MS.gene062893.t1 MTR_1g011850 60.714 112 42 2 21 131 23 133 3.59e-36 121
MS.gene062893.t1 MTR_1g114050 60.550 109 41 2 21 128 20 127 2.90e-35 119
MS.gene062893.t1 MTR_1g071040 62.500 104 37 2 26 128 28 130 1.54e-34 117
MS.gene062893.t1 MTR_1g069770 48.958 96 48 1 45 139 9 104 5.64e-25 92.4
MS.gene062893.t1 MTR_4g048490 44.762 105 29 2 24 128 26 101 1.70e-16 70.9
MS.gene062893.t1 MTR_7g010440 70.588 51 15 0 78 128 122 172 2.24e-16 74.3
MS.gene062893.t1 MTR_4g005910 74.419 43 11 0 87 129 4 46 3.21e-16 68.6
MS.gene062893.t1 MTR_7g027610 41.525 118 42 4 20 135 10 102 5.62e-15 67.0
MS.gene062893.t1 MTR_0653s0030 54.545 55 25 0 55 109 43 97 4.58e-12 60.5
MS.gene062893.t1 MTR_2g096590 70.000 40 12 0 110 149 12 51 5.34e-12 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene062893.t1 AT5G02560 79.739 153 28 1 1 150 1 153 1.48e-77 227
MS.gene062893.t1 AT5G27670 76.316 152 32 3 1 150 1 150 3.32e-74 218
MS.gene062893.t1 AT5G02560 68.927 177 28 2 1 150 1 177 1.06e-72 216
MS.gene062893.t1 AT5G59870 75.000 148 36 1 4 150 3 150 8.98e-72 212
MS.gene062893.t1 AT1G51060 76.667 120 28 0 11 130 3 122 9.15e-61 184
MS.gene062893.t1 AT4G27230 71.538 130 32 1 11 140 3 127 1.43e-59 181
MS.gene062893.t1 AT4G27230 71.538 130 32 1 11 140 3 127 1.43e-59 181
MS.gene062893.t1 AT3G20670 75.630 119 29 0 11 129 3 121 4.77e-59 179
MS.gene062893.t1 AT1G08880 71.654 127 33 1 7 130 2 128 3.47e-58 177
MS.gene062893.t1 AT5G54640 74.790 119 30 0 11 129 3 121 4.51e-58 177
MS.gene062893.t1 AT1G54690 72.868 129 29 3 3 130 5 128 1.19e-57 176
MS.gene062893.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062893.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062893.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062893.t1 AT2G38810 60.714 112 42 2 21 131 25 135 6.97e-37 123
MS.gene062893.t1 AT1G52740 62.857 105 37 2 25 128 27 130 6.18e-35 118
MS.gene062893.t1 AT3G54560 60.185 108 41 2 25 131 29 135 1.25e-34 118
MS.gene062893.t1 AT3G54560 60.185 108 41 2 25 131 29 135 1.25e-34 118
MS.gene062893.t1 AT4G13570 48.913 92 45 2 32 122 28 118 1.97e-20 81.3
MS.gene062893.t1 AT4G13570 48.352 91 45 2 33 122 35 124 5.65e-20 80.1

Find 56 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAGACTTTCCAGCCTTCTT+TGG 0.241789 4.1:-77083774 None:intergenic
AATCAGATCTAAGCCTTCTT+TGG 0.242120 4.1:-77083795 None:intergenic
GTCTTCTTAGGCAACAGAAT+TGG 0.279189 4.1:-77083723 None:intergenic
TTAGCCCTTTCAGTCTTCTT+AGG 0.279305 4.1:-77083735 None:intergenic
CGATTCTTCCGACTGGGAAT+TGG 0.285182 4.1:-77083455 None:intergenic
CTTGTCACCGACTTCTTCCT+TGG 0.303917 4.1:-77083414 None:intergenic
GGCTCCCTTCTTTGTTGTCT+TGG 0.304409 4.1:-77083370 None:intergenic
GAGCATAACGACCTTTCTTC+AGG 0.360921 4.1:-77083485 None:intergenic
GAGCTTGGGAAGTTGCTTGC+TGG 0.378028 4.1:+77083660 MS.gene062893:CDS
TCTTCTTAGGCAACAGAATT+GGG 0.399065 4.1:-77083722 None:intergenic
CATTCCAAGGCATTTGTTGT+TGG 0.411010 4.1:+77083620 MS.gene062893:CDS
GAAGGGAGCCGGTGGAAGAA+AGG 0.417242 4.1:+77083383 MS.gene062893:CDS
AAGGGAGCCGGTGGAAGAAA+GGG 0.429527 4.1:+77083384 MS.gene062893:CDS
CAATTCCCAGTCGGAAGAAT+CGG 0.431861 4.1:+77083456 MS.gene062893:CDS
AACAGAATTGGGTTAATGTT+CGG 0.436254 4.1:-77083711 None:intergenic
AGAACTGCGGCTAGGTAAAC+CGG 0.450323 4.1:-77083528 None:intergenic
TATGCTCAGCGTGTCGGCAC+CGG 0.464760 4.1:+77083501 MS.gene062893:CDS
ACCTCCTCCCTTTCTTCCAC+CGG 0.471747 4.1:-77083391 None:intergenic
CGCTGCTGAAGTTCTTGAGT+TGG 0.474639 4.1:+77083560 MS.gene062893:CDS
GCTGAAGTTCTTGAGTTGGC+TGG 0.476603 4.1:+77083564 MS.gene062893:CDS
GCGTGTCGGCACCGGTGCTC+CGG 0.486643 4.1:+77083509 MS.gene062893:CDS
GAATTGGAGACCGGCTCTGA+TGG 0.486869 4.1:-77083439 None:intergenic
AAGCACCAAGACAACAAAGA+AGG 0.501816 4.1:+77083365 MS.gene062893:CDS
AGCAAGGAACCAAAGAAGGC+TGG 0.510603 4.1:+77083765 MS.gene062893:CDS
GGCTGGAAAGTCTCCAAAGA+AGG 0.525629 4.1:+77083782 MS.gene062893:CDS
ACAGCCAACAACAAATGCCT+TGG 0.530810 4.1:-77083624 None:intergenic
GTGAGGAATGATGAAGAGCT+TGG 0.543487 4.1:+77083645 MS.gene062893:CDS
ATCGGTCGATACCTGAAGAA+AGG 0.548682 4.1:+77083474 MS.gene062893:CDS
TATCGACCGATTCTTCCGAC+TGG 0.549955 4.1:-77083462 None:intergenic
TGGTAGCAAGGAACCAAAGA+AGG 0.550474 4.1:+77083761 MS.gene062893:CDS
TGTTGCCTAAGAAGACTGAA+AGG 0.556495 4.1:+77083730 MS.gene062893:CDS
GGCTAGGTAAACCGGAGCAC+CGG 0.557328 4.1:-77083520 None:intergenic
AGCACCAAGACAACAAAGAA+GGG 0.558080 4.1:+77083366 MS.gene062893:CDS
GAAGAAAGGGAGGAGGTCCA+AGG 0.558674 4.1:+77083397 MS.gene062893:CDS
TGAGGAATGATGAAGAGCTT+GGG 0.560327 4.1:+77083646 MS.gene062893:CDS
TCCGACTGGGAATTGGAGAC+CGG 0.563841 4.1:-77083448 None:intergenic
AAGAACACCACCATGAGCTA+TGG 0.573393 4.1:-77083688 None:intergenic
AAGACAACAAAGAAGGGAGC+CGG 0.578427 4.1:+77083372 MS.gene062893:CDS
GCTGGTGTTACCATAGCTCA+TGG 0.586669 4.1:+77083678 MS.gene062893:CDS
GGTCGTTATGCTCAGCGTGT+CGG 0.588968 4.1:+77083495 MS.gene062893:CDS
GTGACAAGATCCATCAGAGC+CGG 0.589197 4.1:+77083429 MS.gene062893:CDS
GTTGCCTAAGAAGACTGAAA+GGG 0.589268 4.1:+77083731 MS.gene062893:CDS
GCCGGTGGAAGAAAGGGAGG+AGG 0.593863 4.1:+77083390 MS.gene062893:CDS
AAGGGCTAACACTGGTAGCA+AGG 0.594830 4.1:+77083749 MS.gene062893:CDS
ACAACAAAGAAGGGAGCCGG+TGG 0.595449 4.1:+77083375 MS.gene062893:CDS
GGAGCCGGTGGAAGAAAGGG+AGG 0.604037 4.1:+77083387 MS.gene062893:CDS
ATCGACCGATTCTTCCGACT+GGG 0.613102 4.1:-77083461 None:intergenic
AGAAGAATAGAATCATTCCA+AGG 0.617592 4.1:+77083607 MS.gene062893:CDS
AGGAGGTCCAAGGAAGAAGT+CGG 0.620460 4.1:+77083407 MS.gene062893:CDS
GGTATTCAAGAACTGCGGCT+AGG 0.625337 4.1:-77083536 None:intergenic
GGCATTTGTTGTTGGCTGTG+AGG 0.627947 4.1:+77083628 MS.gene062893:CDS
GCCGGTCTCCAATTCCCAGT+CGG 0.630576 4.1:+77083447 MS.gene062893:CDS
AAGACTGAAAGGGCTAACAC+TGG 0.665786 4.1:+77083741 MS.gene062893:CDS
AGCGAGGTATTCAAGAACTG+CGG 0.702914 4.1:-77083541 None:intergenic
ACTCAAGAACTTCAGCAGCG+AGG 0.730395 4.1:-77083557 None:intergenic
GGTGTTACCATAGCTCATGG+TGG 0.742529 4.1:+77083681 MS.gene062893:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAGAATTGGGTTAATGTT+CGG - chr4.1:77083714-77083733 None:intergenic 30.0%
AGAAGAATAGAATCATTCCA+AGG + chr4.1:77083607-77083626 MS.gene062893:CDS 30.0%
TCTTCTTAGGCAACAGAATT+GGG - chr4.1:77083725-77083744 None:intergenic 35.0%
AAGCACCAAGACAACAAAGA+AGG + chr4.1:77083365-77083384 MS.gene062893:CDS 40.0%
AGCACCAAGACAACAAAGAA+GGG + chr4.1:77083366-77083385 MS.gene062893:CDS 40.0%
GTCTTCTTAGGCAACAGAAT+TGG - chr4.1:77083726-77083745 None:intergenic 40.0%
GTTGCCTAAGAAGACTGAAA+GGG + chr4.1:77083731-77083750 MS.gene062893:CDS 40.0%
TGAGGAATGATGAAGAGCTT+GGG + chr4.1:77083646-77083665 MS.gene062893:CDS 40.0%
TGTTGCCTAAGAAGACTGAA+AGG + chr4.1:77083730-77083749 MS.gene062893:CDS 40.0%
TTAGCCCTTTCAGTCTTCTT+AGG - chr4.1:77083738-77083757 None:intergenic 40.0%
!! CATTCCAAGGCATTTGTTGT+TGG + chr4.1:77083620-77083639 MS.gene062893:CDS 40.0%
AAGAACACCACCATGAGCTA+TGG - chr4.1:77083691-77083710 None:intergenic 45.0%
AAGACAACAAAGAAGGGAGC+CGG + chr4.1:77083372-77083391 MS.gene062893:CDS 45.0%
AAGACTGAAAGGGCTAACAC+TGG + chr4.1:77083741-77083760 MS.gene062893:CDS 45.0%
ACAGCCAACAACAAATGCCT+TGG - chr4.1:77083627-77083646 None:intergenic 45.0%
ATCGGTCGATACCTGAAGAA+AGG + chr4.1:77083474-77083493 MS.gene062893:CDS 45.0%
CAATTCCCAGTCGGAAGAAT+CGG + chr4.1:77083456-77083475 MS.gene062893:CDS 45.0%
GAGCATAACGACCTTTCTTC+AGG - chr4.1:77083488-77083507 None:intergenic 45.0%
GTGAGGAATGATGAAGAGCT+TGG + chr4.1:77083645-77083664 MS.gene062893:CDS 45.0%
TGGTAGCAAGGAACCAAAGA+AGG + chr4.1:77083761-77083780 MS.gene062893:CDS 45.0%
! AGCGAGGTATTCAAGAACTG+CGG - chr4.1:77083544-77083563 None:intergenic 45.0%
AAGGGCTAACACTGGTAGCA+AGG + chr4.1:77083749-77083768 MS.gene062893:CDS 50.0%
ACTCAAGAACTTCAGCAGCG+AGG - chr4.1:77083560-77083579 None:intergenic 50.0%
AGAACTGCGGCTAGGTAAAC+CGG - chr4.1:77083531-77083550 None:intergenic 50.0%
AGCAAGGAACCAAAGAAGGC+TGG + chr4.1:77083765-77083784 MS.gene062893:CDS 50.0%
AGGAGGTCCAAGGAAGAAGT+CGG + chr4.1:77083407-77083426 MS.gene062893:CDS 50.0%
CGATTCTTCCGACTGGGAAT+TGG - chr4.1:77083458-77083477 None:intergenic 50.0%
CGCTGCTGAAGTTCTTGAGT+TGG + chr4.1:77083560-77083579 MS.gene062893:CDS 50.0%
GGAGACTTTCCAGCCTTCTT+TGG - chr4.1:77083777-77083796 None:intergenic 50.0%
GGCTGGAAAGTCTCCAAAGA+AGG + chr4.1:77083782-77083801 MS.gene062893:CDS 50.0%
GGTATTCAAGAACTGCGGCT+AGG - chr4.1:77083539-77083558 None:intergenic 50.0%
GTGACAAGATCCATCAGAGC+CGG + chr4.1:77083429-77083448 MS.gene062893:CDS 50.0%
! ATCGACCGATTCTTCCGACT+GGG - chr4.1:77083464-77083483 None:intergenic 50.0%
! GGCTCCCTTCTTTGTTGTCT+TGG - chr4.1:77083373-77083392 None:intergenic 50.0%
! GGTGTTACCATAGCTCATGG+TGG + chr4.1:77083681-77083700 MS.gene062893:CDS 50.0%
! TATCGACCGATTCTTCCGAC+TGG - chr4.1:77083465-77083484 None:intergenic 50.0%
!! CTTGTCACCGACTTCTTCCT+TGG - chr4.1:77083417-77083436 None:intergenic 50.0%
!! GCTGAAGTTCTTGAGTTGGC+TGG + chr4.1:77083564-77083583 MS.gene062893:CDS 50.0%
!! GCTGGTGTTACCATAGCTCA+TGG + chr4.1:77083678-77083697 MS.gene062893:CDS 50.0%
!! GGCATTTGTTGTTGGCTGTG+AGG + chr4.1:77083628-77083647 MS.gene062893:CDS 50.0%
AAGGGAGCCGGTGGAAGAAA+GGG + chr4.1:77083384-77083403 MS.gene062893:CDS 55.0%
ACAACAAAGAAGGGAGCCGG+TGG + chr4.1:77083375-77083394 MS.gene062893:CDS 55.0%
ACCTCCTCCCTTTCTTCCAC+CGG - chr4.1:77083394-77083413 None:intergenic 55.0%
GAAGAAAGGGAGGAGGTCCA+AGG + chr4.1:77083397-77083416 MS.gene062893:CDS 55.0%
GAGCTTGGGAAGTTGCTTGC+TGG + chr4.1:77083660-77083679 MS.gene062893:CDS 55.0%
GGTCGTTATGCTCAGCGTGT+CGG + chr4.1:77083495-77083514 MS.gene062893:CDS 55.0%
TCCGACTGGGAATTGGAGAC+CGG - chr4.1:77083451-77083470 None:intergenic 55.0%
! GAATTGGAGACCGGCTCTGA+TGG - chr4.1:77083442-77083461 None:intergenic 55.0%
GAAGGGAGCCGGTGGAAGAA+AGG + chr4.1:77083383-77083402 MS.gene062893:CDS 60.0%
GCCGGTCTCCAATTCCCAGT+CGG + chr4.1:77083447-77083466 MS.gene062893:CDS 60.0%
GGCTAGGTAAACCGGAGCAC+CGG - chr4.1:77083523-77083542 None:intergenic 60.0%
! TATGCTCAGCGTGTCGGCAC+CGG + chr4.1:77083501-77083520 MS.gene062893:CDS 60.0%
GCCGGTGGAAGAAAGGGAGG+AGG + chr4.1:77083390-77083409 MS.gene062893:CDS 65.0%
GGAGCCGGTGGAAGAAAGGG+AGG + chr4.1:77083387-77083406 MS.gene062893:CDS 65.0%
!! GCGTGTCGGCACCGGTGCTC+CGG + chr4.1:77083509-77083528 MS.gene062893:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 77083357 77083809 77083357 ID=MS.gene062893
chr4.1 mRNA 77083357 77083809 77083357 ID=MS.gene062893.t1;Parent=MS.gene062893
chr4.1 exon 77083357 77083809 77083357 ID=MS.gene062893.t1.exon1;Parent=MS.gene062893.t1
chr4.1 CDS 77083357 77083809 77083357 ID=cds.MS.gene062893.t1;Parent=MS.gene062893.t1
Gene Sequence

>MS.gene062893

ATGGACGCAAGCACCAAGACAACAAAGAAGGGAGCCGGTGGAAGAAAGGGAGGAGGTCCAAGGAAGAAGTCGGTGACAAGATCCATCAGAGCCGGTCTCCAATTCCCAGTCGGAAGAATCGGTCGATACCTGAAGAAAGGTCGTTATGCTCAGCGTGTCGGCACCGGTGCTCCGGTTTACCTAGCCGCAGTTCTTGAATACCTCGCTGCTGAAGTTCTTGAGTTGGCTGGAAACGCTGCTCGTGATAACAAGAAGAATAGAATCATTCCAAGGCATTTGTTGTTGGCTGTGAGGAATGATGAAGAGCTTGGGAAGTTGCTTGCTGGTGTTACCATAGCTCATGGTGGTGTTCTTCCGAACATTAACCCAATTCTGTTGCCTAAGAAGACTGAAAGGGCTAACACTGGTAGCAAGGAACCAAAGAAGGCTGGAAAGTCTCCAAAGAAGGCTTAG
Protein sequence

>MS.gene062893.t1

MDASTKTTKKGAGGRKGGGPRKKSVTRSIRAGLQFPVGRIGRYLKKGRYAQRVGTGAPVYLAAVLEYLAAEVLELAGNAARDNKKNRIIPRHLLLAVRNDEELGKLLAGVTIAHGGVLPNINPILLPKKTERANTGSKEPKKAGKSPKKA